Locus 5213

Sequence ID 3L_DroMel_CAF1
Location 14,370,939 – 14,371,059
Length 120
Max. P 0.528613
window8249

overview

Window 9

Location 14,370,939 – 14,371,059
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.29
Mean single sequence MFE -37.22
Consensus MFE -20.23
Energy contribution -21.87
Covariance contribution 1.64
Combinations/Pair 1.21
Mean z-score -2.13
Structure conservation index 0.54
SVM decision value -0.01
SVM RNA-class probability 0.528613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14370939 120 + 23771897
AAAGAUCAGCGUCUUCUGCUGUUGUUGAGUCUUGAGUUGGUUUUGAUUUAUAUUCACAACUCCAGAUGGCACCGCAGGUCUCGGGAAGAUGUCAUCCCGAUGACUGAUUUUCGUGAUCUG
..(((((((((((.((((..(((((.((((..((((((......)))))).)))))))))..)))).)))...)).((((((((((.(....).)))))).))))........)))))). ( -40.70)
>DroSec_CAF1 194999 117 + 1
AUAUAUCACCGGCUUCUCUUGCUGUUGAGUCUUGAUUUGGUUUUGAUUUAUAUUCACAACUGCA---GGCACCUCAGGUCUCGGAUAGAUGUCAUCCCGAUGACUUACUUCCCUGAUCUG
.....(((.((((.......)))).)))((((((....((((.(((.......))).)))).))---)).))..((((((..(((.....(((((....))))).....)))..)))))) ( -30.20)
>DroSim_CAF1 190713 117 + 1
AUAUAUCACCGGCUUCUCUUGCUGUUGAGUCUUGAUUUGGUUUUGAUUUAUAUUCACAACUGCA---GGCACCUCAGGUCUCGGGUAGAUGUCAUCCCGAUGACUUACUUCCCUGAUCUG
.....(((.((((.......)))).)))((((((....((((.(((.......))).)))).))---)).))..((((((..(((.((..(((((....)))))...)).))).)))))) ( -31.20)
>DroEre_CAF1 193828 120 + 1
AAGGAUCAGCGACUUCUGCUGCUGUUGGGUCUUGGGUUGGAUUUGACUUUUAUUCUCACUUCCAGCUGGCACCGCCGGUCUCGGGAAGAUGUCAUCCUGAUGGCUCAUUUUCCUGAUCUG
..(((((((.((.(((((..((((.((((((...(((((((..(((.........)))..)))))))))).))).))))..))))).((.(((((....)))))))....))))))))). ( -40.00)
>DroYak_CAF1 201735 120 + 1
AAAGAUCAGCGGAUUCUGCUGCUGUUGGGUCUUGGGUUGGAUUUCAGUUUUAUUCUCACUUCCAGCUGGCACCGCAGGCCGCGGGAAGAUGUCAUCCCGAUGGCUCAUUUUUCUGAUCUG
..(((((((..((..((((((((((((((...((((.((((.......))))..))))..)))))).))))..))))(((((((((.(....).))))).))))....))..))))))). ( -44.00)
>consensus
AAAGAUCAGCGGCUUCUGCUGCUGUUGAGUCUUGAGUUGGUUUUGAUUUAUAUUCACAACUCCAG_UGGCACCGCAGGUCUCGGGAAGAUGUCAUCCCGAUGACUCAUUUUCCUGAUCUG
.....((((((((.......))))))))(((.(((((((.................))))).))...)))....((((((..(((((...(((((....)))))...)))))..)))))) (-20.23 = -21.87 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:40 2006